Development of T cell receptor repertoires during childhood in health and disease

By Emma A., Bunia A., Othilia FS., Tobias C. & Joanna R.

Group 21

Introduction

Intro to the project

Materials:

1. R
2. R
3. R

Methods:

1. Base R
1. Tidyverse R
2. R
3. R

Data Description

Original data (01_dat_load.tsv)

# A tibble: 10 × 12
   sample_name total_templates productive_templates fraction_productive
   <chr>                 <dbl>                <dbl>               <dbl>
 1 310183_TCRB          224872               183692               0.817
 2 310110_TCRB           89218                67780               0.760
 3 310206_TCRB          114016                94082               0.825
 4 310288_TCRB          182141               148123               0.813
 5 310271_TCRB          132340               106177               0.802
 6 310244_TCRB          218280               178995               0.82 
 7 310137_TCRB          156845               130526               0.832
 8 310258_TCRB           88479                71110               0.804
 9 310127_TCRB          145463               117291               0.806
10 310300_TCRB          131632               107604               0.818
# ℹ 8 more variables: total_rearrangements <dbl>,
#   productive_rearrangements <dbl>, productive_simpson_clonality <dbl>,
#   max_productive_frequency <dbl>, locus <chr>, sample_tags <chr>, sku <chr>,
#   test_name <chr>

Data Wrangling

Augmented data (03_dat_aug.tsv)

# A tibble: 10 × 24
   sample_name total_templates productive_templates fraction_productive
   <chr>                 <dbl>                <dbl>               <dbl>
 1 310102_TCRB          121173                96410               0.796
 2 310102_TCRB          121173                96410               0.796
 3 310102_TCRB          121173                96410               0.796
 4 310102_TCRB          121173                96410               0.796
 5 310102_TCRB          121173                96410               0.796
 6 310102_TCRB          121173                96410               0.796
 7 310102_TCRB          121173                96410               0.796
 8 310102_TCRB          121173                96410               0.796
 9 310102_TCRB          121173                96410               0.796
10 310102_TCRB          121173                96410               0.796
# ℹ 20 more variables: total_rearrangements <dbl>,
#   productive_rearrangements <dbl>, productive_simpson_clonality <dbl>,
#   max_productive_frequency <dbl>, locus <chr>, sku <chr>, test_name <chr>,
#   case_control <chr>, id <dbl>, timepoint <dbl>, gender <chr>,
#   ethnicity <chr>, race <chr>, age <dbl>, age_diagnosis <dbl>,
#   age_visit <dbl>, antibody <chr>, expression <dbl>, allele <chr>,
#   subtype <chr>

Antibody Expression

Antibody Expression, PCA

HLA Expression

HLA Expression, PCA

Discussion

Discuss the implications of your findings. Interpret the results and relate them to your objectives.

  • ZnT8 for control patients …
  • Missing values for control patients

Conclusion

Summarize the main points discussed in the presentation. Emphasize the significance of your work and any future directions.

  • Something …
  • Something else …
  • THANK YOU for listening